Evidence map›Paper›PMID 28753430›Full record

ArticleCell2017

Defining a Cancer Dependency Map.

Aviad Tsherniak, Francisca Vazquez, Phil G Montgomery, Barbara A Weir, Gregory Kryukov, Glenn S Cowley, Stanley Gill, William F Harrington, Sasha Pantel, John M Krill-Burger and 15 more

Open access · bronzeAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Cell, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2,135 papers, 2 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
2,135citing papers in PubMed, 2 pooled it
71.5field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2,135 citing papers in PubMed, 2 syntheses or guidelines pooled it, 3,360 citations in OpenAlex.

  1. Pooled it
  2. Pooled it
  3. CRISPR/Cas Systems: Biological Basis and Genome Editing Applications.Methods in molecular biology (Clifton, N.J.) · 2027
    Review
  4. Article
  5. Computational Network Analysis for Defining Transcriptional Programs.Methods in molecular biology (Clifton, N.J.) · 2027
    Article
  6. Review
  7. Article
  8. Review
  9. Article
  10. Review
  11. Article
  12. Article
  13. Article
  14. Article
  15. Target discovery and drug design in the era of artificial intelligence.Medicinal chemistry research : an international journal for rapid communications on design and mechanisms of action of biologically active agents · 2026
    Review
  16. Review
  17. Article
  18. Article
  19. Article
  20. Disentangling Heterogeneous Molecular Networks for Multi-Omics-Driven Cancer Driver Discovery.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026
    Article

2,075 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

25 authors at 3 institutions in 1 country.

Aviad TsherniakBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Francisca VazquezBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA; Dana-Farber Cancer Institute, 450 Brookline Avenue, Boston, MA, USA.
Phil G MontgomeryBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Barbara A WeirBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA; Dana-Farber Cancer Institute, 450 Brookline Avenue, Boston, MA, USA.
Gregory KryukovBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA; Dana-Farber Cancer Institute, 450 Brookline Avenue, Boston, MA, USA.
Glenn S CowleyBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Stanley GillBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA; Dana-Farber Cancer Institute, 450 Brookline Avenue, Boston, MA, USA.
William F HarringtonBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Sasha PantelBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
John M Krill-BurgerBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Robin M MeyersBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Levi AliBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Amy GoodaleBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Yenarae LeeBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Guozhi JiangBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Jessica HsiaoBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
William F J GerathBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Sara HowellBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Erin MerkelBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Mahmoud GhandiBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Levi A GarrawayBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA; Dana-Farber Cancer Institute, 450 Brookline Avenue, Boston, MA, USA; Department of Medicine, Brigham and Women's Hospital, 75 Francis Street, Boston, MA, USA; Harvard Medical School, 25 Shattuck Street, Boston, MA, USA; Howard Hughes Medical Institute, 4000 Jones Bridge Road, Chevy Chase, MD, USA.
David E RootBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
Todd R GolubBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA; Dana-Farber Cancer Institute, 450 Brookline Avenue, Boston, MA, USA; Harvard Medical School, 25 Shattuck Street, Boston, MA, USA; Howard Hughes Medical Institute, 4000 Jones Bridge Road, Chevy Chase, MD, USA.
Jesse S BoehmBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA.
William C HahnBroad Institute of Harvard and MIT, 415 Main Street, Cambridge, MA, USA; Dana-Farber Cancer Institute, 450 Brookline Avenue, Boston, MA, USA; Department of Medicine, Brigham and Women's Hospital, 75 Francis Street, Boston, MA, USA; Harvard Medical School, 25 Shattuck Street, Boston, MA, USA. Electronic address: william_hahn@dfci.harvard.edu.
Broad Institute · USDana-Farber Cancer Institute · USLemuel Shattuck Hospital · US

Funding

Signatures of Kinase Activation in Cancer (MIT consortium)U54CA112962 · NCI · DANA-FARBER CANCER INSTITUTE · PI GOLUB, TODD R. · 2004 to 2014
$24.2M
PROJECT 4: Interrogating PP2A Signaling in Human CancersP01CA203655 · NCI · DANA-FARBER CANCER INST · PI DECAPRIO, JAMES A. · 2017 to 2021
$8.0M
The Dana-Farber Cancer Institute Cancer Target Discovery and Development CenterU01CA176058 · NCI · DANA-FARBER CANCER INST · PI HAHN, WILLIAM C. · 2013 to 2021
$7.8M
Systematic identification of oncogenic KRAS synthetic lethal interactionsU01CA199253 · NCI · BROAD INSTITUTE, INC. · PI HAHN, WILLIAM C. · 2015 to 2019
$3.7M
Regulation and function of IKKe in breast cancer initiation and maintenanceR01CA130988 · NCI · DANA-FARBER CANCER INST · PI HAHN, WILLIAM C. · 2009 to 2018
$3.5M
NCI NIH HHS P01 CA203655NCI NIH HHS R01 CA130988NCI NIH HHS U01 CA176058NCI NIH HHS U01 CA199253NCI NIH HHS U54 CA112962
6 · The paper itself

Abstract

Most human epithelial tumors harbor numerous alterations, making it difficult to predict which genes are required for tumor survival. To systematically identify cancer dependencies, we analyzed 501 genome-scale loss-of-function screens performed in diverse human cancer cell lines. We developed DEMETER, an analytical framework that segregates on- from off-target effects of RNAi. 769 genes were differentially required in subsets of these cell lines at a threshold of six SDs from the mean. We found predictive models for 426 dependencies (55%) by nonlinear regression modeling considering 66,646 molecular features. Many dependencies fall into a limited number of classes, and unexpectedly, in 82% of models, the top biomarkers were expression based. We demonstrated the basis behind one such predictive model linking hypermethylation of the UBB ubiquitin gene to a dependency on UBC. Together, these observations provide a foundation for a cancer dependency map that facilitates the prioritization of therapeutic targets.

Indexed as

Cell Line, TumorHumansNeoplasmsRNA InterferenceSoftwareUbiquitinUbiquitincancer dependenciescancer targetsgenetic vulnerabilitiesgenomic biomarkersprecision medicinepredictive modelingRNAi screensseed effectsshRNA

Identifiers

PMID28753430
PMCPMC5667678
OpenAlexW2741508285

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.